TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1894c/-:

update plot	correlation	link to info on gene
Rv1834/lipZ	(cc=0.6359)	info on Rv1834/lipZ
Rv3295/-	(cc=0.6062)	info on Rv3295/-
Rv1734c/-	(cc=0.5995)	info on Rv1734c/-
Rv0540/-	(cc=0.5729)	info on Rv0540/-
Rv3059/cyp136	(cc=0.5715)	info on Rv3059/cyp136
Rv2633c/-	(cc=0.5691)	info on Rv2633c/-
Rv1467c/fadE15	(cc=0.5609)	info on Rv1467c/fadE15
Rv2030c/-	(cc=0.5563)	info on Rv2030c/-
Rv1041c/-	(cc=0.5561)	info on Rv1041c/-
Rv2642/-	(cc=0.5404)	info on Rv2642/-

Correlation of Rv1894c/- with Rv3295/-

Normalized LFCs for Rv1894c/-:
(description and provenance of datasets)

	Rv1894c/-	Rv3295/-
Fe_supp_jason_reseq	-0.472	-0.311
low_pH_jason_reseq	-0.959	-1.467
NO_jason_reseq	0.588	0.399
B6_jason_reseq	0.018	1.709
MHCII_jason_reseq	0.616	2.745
Isoniazid02	-0.904	-0.08
Rifampicin4	-0.125	-0.736
Ethambutol3	-0.181	-0.766
Meropenem3	1.114	1.594
Vancomycin16	-0.695	-2.144
Rv2680_day32	-0.345	-0.028
H37Rv_KO_MarP	0.058	0.872
hypoxia_3wks	-0.283	0.04
hypoxia_6wks	0.079	0.069
glycerol	0.064	-1.066
cholesterol	0.043	-0.911
AJ	-0.061	-0.094
Bibs02	0.083	-0.197
Bibs02c	-0.059	-0.488
BL6	-0.702	-1.617
BL6a	-0.41	-1.21
BXD01	-0.256	-2.04
BXD010	-0.792	-1.261
BXD011	0.4	-1.45
BXD03	-1.064	-1.975
BXD04	-1.142	-1.206
BXD05	-0.608	-1.799
BXD06	-0.848	-1.84
BXD07	-0.978	-1.907
BXD08	-0.337	-2.202
BXD09	-0.823	-1.692
CAST	0.656	-0.377
CCcont	-1.281	-2.55
DS01	0.175	-0.573
DS02	-0.129	-0.243
DS04	-0.022	-1.214
DS0c	-0.233	-0.159
GP01	-0.748	-0.495
GP02	0.116	-1.862
GP0c	-0.767	-3.192
NOD	1.357	0.265
NZO	0.244	0.438
PWK	0.392	-0.034
H37Rv_KO_CtpC	-0.069	-1.189
H37Rv_KO_CtpD	-0.838	-0.309
H37Rv_KO_Rv1272	0.064	-0.822
H37Rv_KO_SugABC	0.722	-1.536
H37Rv_KO_MbtN	0.827	-2.764
Trans05	0.568	-1.09
macrophage_unactivated	-0.884	-3.033
IL1	-0.578	-2.637
Rapamycin	-0.957	-2.998
Tcell	-0.541	-2.77
GMCSF	-0.325	-2.389
IFNab	-0.895	-4.099
IFNg	-1.269	-1.86
IFNg_GMCSF1	0.06	-1.555
Rv1432_day32	0.13	0.528
Rv1565c_day32	0.289	1.414
secA2_input	-0.009	0.819
delta_Rv3594	0.217	-0.159
delta_Rv3717	0.019	-0.35
delta_Rv3811	0.311	-0.437
delta_Rv0954	-0.19	-0.012
PonA1	0.473	0.697
EccD1_KO	0.191	-0.536
EspI_KO	0.202	-0.442
PE35_KO	0.289	-0.096
PPE68_KO	0.042	0.067
glycerol2	0.769	2.42
lignocerate	0.418	1.125
oleate	1.127	-0.113
phosphatidylcholine	0.973	2.459
acetate	-0.495	0.436
glucAc	-0.634	0.323
Rv0950ko	0.959	1.019
Rv1096ko	0.576	0.338
Rv3684ko	0.75	0.907
delta_otsA_trehalose	0.739	0.261